title: The role of cross-chain ionic interactions for the stability of collagen model peptides.
abstract: The contribution of ionic interactions to the stability of the collagen triple helix was studied using molecular dynamics (MD) simulations and biophysical methods. To this end, we examined the stability of a host-guest collagen model peptide, Ac-GPOGPOGPYGXOGPOGPO-NH2, substituting KGE, KGD, EGK, and DGK for the YGX sequence. All-atom, implicit solvent MD simulations show that the fraction of cross-chain ionic interactions formed is different, with the most pronounced in the KGE and KGD sequences, and the least in the DGK sequence. To test whether the fraction of cross-chain ionic interactions correlates with the stability, experimental measurements of thermostability were done using differential scanning calorimetry and circular dichroism spectroscopy. It was found that the melting temperature is very similar for KGE and KGD peptides, whereas the EGK peptide has lower thermostability and the DGK peptide is the least thermostable. A novel, to our knowledge, computational protocol termed temperature-scan MD was applied to estimate the relative stabilities of the peptides from MD simulations. We found an excellent correlation between transition temperatures obtained from temperature-scan MD and those measured experimentally. These results suggest the importance of cross-chain ionic interactions for the stability of collagen triple helix and confirm the utility of MD simulations in predicting interactions and stability in this system.
authors.affiliation: Department of Biomedical Engineering, Tufts University, Medford, Massachusetts.
authors.forename: Neelam
authors.initials: N
authors.lastname: Keshwani
authors.forename: Shounak
authors.initials: S
authors.lastname: Banerjee
authors.forename: Barbara
authors.initials: B
authors.lastname: Brodsky
authors.forename: George I
authors.initials: GI
authors.lastname: Makhatadze
mesh_terms: D020816:Amino Acid Motifs; D000595:Amino Acid Sequence; D000818:Animals; D003094:Collagen / Q000737:chemistry*; D006801:Humans; D056004:Molecular Dynamics Simulation; D008969:Molecular Sequence Data; D011485:Protein Binding; D055550:Protein Stability; D017434:Protein Structure, Tertiary; D055672:Static Electricity; D013696:Temperature
chemical_list: D003094:Collagen